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PABPN1 RNA-Seq in HepG2



PABPN1      CRISPR in HepG2      Control:

General Information
RBPPABPN1
Cell_LineHepG2
MethodCRISPR
Exp_NamePABPN1-BGHcLV41-HepG2
ENCODE_series_ID
Batch_IDBGHcLV41
Pool IDPool-240314
Local_Set_Nameset70
ENCODE_KD_Exp_ID
ENCODE_CN_Exp_ID
Rep1PABPN1-BGHcLV41-89
Rep2PABPN1-BGHcLV41-90
CN1NT-BGHcLV41-1
CN2NT-BGHcLV41-2
Rep1_qPCR39.3
Rep2_qPCR55.6
Rep1_WB99.3
Rep2_WB98.5
Antibody Cat#14154S
Antibody Lot#lot # 1
Antibody DCC ID
StatusSubmitted
ProjectENCORE2
ID1463




Experiment Information (Status: Submitting)
BGHcLV41-89BGHcLV41-90
idx13621363
TRCN#_or_BGC#BGC#0001040BGC#0001040
shRNA_or_gRNA_sequenceAGTTACTCACCATTGCCTGGAGTTACTCACCATTGCCTGG
PAMAGGAGG
NamePABPN1-70PABPN1-70
Sample_IDBGHcLV41-89BGHcLV41-90
transduction_Date1/12/241/12/24
daysD6D6
RBP_namePABPN1PABPN1
qPCR_result39.355.6
Ave_qPCR47.5
RT-qPCR_primer-Fcggtgatcatgtccattgag
RT-qPCR_primer-Ragcttccagctcttctgctg
protein_conc31613728
WB_result99.398.5
Ave_WB98.9
WB_DONE_date1/24/24
MW50KD
IPRabbit / I
antibody_Cat#14154Slot # 1
Antibody DCC ID
submitted_to_DCC_date
Rep1_TPM00
Rep2_TPM00
ActionReadyReady
Library_start_date
repeat_library
Note
ID75597560




Western Blot
RBP Antibody InfoPrimary-HepG2Secondary-HepG2Primary-K562Secondary-K562Primary-UBERONPrimary-Hela
PABPN1Product_ID: 14154S
Lot_ID: 1
Source: Cell Signaling Technology
Target Name: PABPN1-human		 PABPN1-HEPG2-CRISPR-14154S.png<br>Caption: Western blot following CRISPR against PABPN1 in HepG2 whole cell lysate using PABPN1 specific antibody. Lane 1 is a ladder, lane 2 is HepG2 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against PABPN1. PABPN1 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.
 CST_14154S_1_PABPN1.png<br>Caption: IP-WB analysis of 14154S whole cell lysate using the PABPN1 specific antibody, 14154S. Lanes 1 and 2 are 2.5% of five million whole cell lysate input and 50% of IP enrichment, respectively, using a normal IgG antibody. Lane 3 is 50% of IP enrichment from five million whole cell lysate using the PABPN1-specific antibody, 14154S. The same antibody was used to detect protein levels via Western blot. This antibody passes preliminary validation and will be further pursued for secondary validation. *NOTE* Protein sizes are taken from Genecards.org and are only estimates based on sequence. Actual protein size may differ based on protein characteristics and electrophoresis method used.
 PABPN1-K562-CRISPR-14154S.png<br>Caption: Western blot following CRISPR against PABPN1 in K562 whole cell lysate using PABPN1 specific antibody. Lane 1 is a ladder, lane 2 is K562 non-targeting control knockdown, lane 3 and 4 are two different CRISPR against PABPN1. PABPN1 protein appears as the green arrow, Beta-actin serves as a control and appears in red arrow.




Experiment Status
BGHcLV41-89BGHcLV41-90
Sample_IDBGHcLV41-89BGHcLV41-90
Sample Name
Sample NamePABPN1-BGHcLV41-89PABPN1-BGHcLV41-90
RBPPABPN1PABPN1
Cell_LineHepG2HepG2
Exp UID
StatusSubmittingSubmitting
Status_date2024-09-202024-09-20
ProjectENCORE2ENCORE2
Note
ID1298612987




Library-Prep Information
BGHcLV41-89BGHcLV41-90
Sample #3940
Sample NamePABPN1-BGHcLV41-89PABPN1-BGHcLV41-90
Sample_Name_Alias
Index Well PositionG05H05
Index_tableIDT_UniqueDualIndex_96IDT_UniqueDualIndex_96
LibPrep_date2024-03-012024-03-01
Lib_IDLib-240301Lib-240301
Tecan_Location
Tecan
Tecan_date
Size_bp294296
Peak_Molarity85.3066.90
libSampleQC_DNA_WellDNA_Library_set70/set1/G5.pngDNA_Library_set70/set1/H5.png
RIN9.910.0
libSample_RNA_WellRNA_Library_set70/set1/C11.pngRNA_Library_set70/set1/D11.png
SampleQC_methodTapeStation_2022TapeStation_2022
SampleQC_date2024-03-142024-03-14
Sample_IDBGHcLV41-89BGHcLV41-90
RBPPABPN1PABPN1
Batch_IDBGHcLV41BGHcLV41
WB_result99.30098.500
Library DescriptionTruSeq mRNATruSeq mRNA
Repeat_Library_Suffix
Lib_StatusSendToSequenceSendToSequence
ProjectENCORE2ENCORE2
ID42644265




Sequencing Information
BGHcLV41-89BGHcLV41-90
Sample_IDBGHcLV41-89BGHcLV41-90
Sample NamePABPN1-BGHcLV41-89PABPN1-BGHcLV41-90
Pool IDPool-240314Pool-240314
LocalServer_folderset70set70
total_reads43,896,72346,082,016
total_aligned_reads41,004,12343,129,940
unique_aligned_reads38,736,11640,730,724
percent_uniqueAligned0.882440.88387
correlation_replicates0.9985790.998579
spikein_reads7,52011,020
percent_spikeins0.000170.00024
original_ReadLength151151
QC_StatusSubmittingSubmitting
ID29832984




Data Submission Information
DCC submission information was not avaliable




File Information
Files of the experiment was not avaliable in the database